Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000592.1 Hibiscus syriacus cultivar Beakdansim tig00001148_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 76194
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:5066 original size:17 final size:17
Alignment explanation
Indices: 5044--5076 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5034 TGGGATATCT
5044 TTCTTTCATTATAAATC
1 TTCTTTCATTATAAATC
5061 TTCTTTCATTATAAAT
1 TTCTTTCATTATAAAT
5077 GACTTCAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (17 bp):
TTCTTTCATTATAAATC
Found at i:14621 original size:207 final size:207
Alignment explanation
Indices: 14369--14778 Score: 802
Period size: 207 Copynumber: 2.0 Consensus size: 207
14359 AATGAAAGAG
*
14369 ATAGAAGTATCTACTCTATCTCTGCTCCTTCTAATACCCAAAAAAAGTGGCAACTTACTATTTAT
1 ATAGAAGTATCTACTCTATCTCTGCTCCTTCCAATACCCAAAAAAAGTGGCAACTTACTATTTAT
14434 GGACTGCTCTTTTTATTAAAAACATAGTTTTACTGTATTTTTGTGTGTGGGATGTGTAGGGAAGA
66 GGACTGCTCTTTTTATTAAAAACATAGTTTTACTGTATTTTTGTGTGTGGGATGTGTAGGGAAGA
*
14499 GTTTAGATTCTTTCTAAAAATGAGAATGGCAAAGATGCAGGTGTAATTGGCATTGTCTACATACA
131 GTTTAGATTCTTTCTAAAAATGAGAATGGCAAAGATGCAGGTGTAATTGGCATTGGCTACATACA
14564 CTTTTTAAAAAC
196 CTTTTTAAAAAC
14576 ATAGAAGTATCTACTCTATCTCTGCTCCTTCCAATACCCAAAAAAAGTGGCAACTTACTATTTAT
1 ATAGAAGTATCTACTCTATCTCTGCTCCTTCCAATACCCAAAAAAAGTGGCAACTTACTATTTAT
14641 GGACTGCTCTTTTTATTAAAAACATAGTTTTACTGTATTTTTGTGTGTGGGATGTGTAGGGAAGA
66 GGACTGCTCTTTTTATTAAAAACATAGTTTTACTGTATTTTTGTGTGTGGGATGTGTAGGGAAGA
14706 GTTTAGATTCTTTCTAAAAATGAGAATGGCAAAGATGCAGGTGTAATTGGCATTGGCTACATACA
131 GTTTAGATTCTTTCTAAAAATGAGAATGGCAAAGATGCAGGTGTAATTGGCATTGGCTACATACA
14771 CTTTTTAA
196 CTTTTTAA
14779 GTTTTTTTTT
Statistics
Matches: 201, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 201 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (207 bp):
ATAGAAGTATCTACTCTATCTCTGCTCCTTCCAATACCCAAAAAAAGTGGCAACTTACTATTTAT
GGACTGCTCTTTTTATTAAAAACATAGTTTTACTGTATTTTTGTGTGTGGGATGTGTAGGGAAGA
GTTTAGATTCTTTCTAAAAATGAGAATGGCAAAGATGCAGGTGTAATTGGCATTGGCTACATACA
CTTTTTAAAAAC
Found at i:20117 original size:103 final size:103
Alignment explanation
Indices: 19948--20162 Score: 369
Period size: 103 Copynumber: 2.1 Consensus size: 103
19938 TGTCCATAAG
* **
19948 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACAAGAAATCAAGTATGTGTCTCACCAGAC
20013 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
*
20051 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGAAAT-AAGTATGTGTCTCACCAGA
1 GACCACATATCATTCCTTAAGAATCATATACATAT-ACAAGAAATCAAGTATGTGTCTCACCAGA
*
20115 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
65 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
20154 GACCACATA
1 GACCACATA
20163 GACCCTCGAC
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 101 0.95
104 5 0.05
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACAAGAAATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
Found at i:20958 original size:23 final size:23
Alignment explanation
Indices: 20928--21001 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
20918 TACACAGTGT
20928 ATCGATGCATTCCCTATCGGTGC
1 ATCGATGCATTCCCTATCGGTGC
* * *
20951 ATCGATGCA----CTACCTGTGT
1 ATCGATGCATTCCCTATCGGTGC
20970 ATCGATGCATTCCCTATCGGTGC
1 ATCGATGCATTCCCTATCGGTGC
20993 ATCGATGCA
1 ATCGATGCA
21002 CTACCTGTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 16 0.39
23 25 0.61
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (23 bp):
ATCGATGCATTCCCTATCGGTGC
Found at i:20975 original size:19 final size:19
Alignment explanation
Indices: 20907--21020 Score: 75
Period size: 19 Copynumber: 5.5 Consensus size: 19
20897 TGAAGGTATA
*
20907 CATCGATGCACTACACAGTG
1 CATCGATGCACTAC-CGGTG
* *
20927 TATCGATGCATTCCCTATCGGTG
1 CATCGATGCA----CTACCGGTG
*
20950 CATCGATGCACTACCTGTG
1 CATCGATGCACTACCGGTG
* *
20969 TATCGATGCATTCCCTATCGGTG
1 CATCGATGCA----CTACCGGTG
*
20992 CATCGATGCACTACCTGTG
1 CATCGATGCACTACCGGTG
*
21011 CATCGGTGCA
1 CATCGATGCA
21021 TAAAATACAT
Statistics
Matches: 73, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
19 32 0.44
20 9 0.12
23 29 0.40
24 3 0.04
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (19 bp):
CATCGATGCACTACCGGTG
Found at i:20979 original size:42 final size:42
Alignment explanation
Indices: 20907--21021 Score: 194
Period size: 42 Copynumber: 2.7 Consensus size: 42
20897 TGAAGGTATA
*
20907 CATCGATGCACTACACAGTGTATCGATGCATTCCCTATCGGTG
1 CATCGATGCACTAC-CTGTGTATCGATGCATTCCCTATCGGTG
20950 CATCGATGCACTACCTGTGTATCGATGCATTCCCTATCGGTG
1 CATCGATGCACTACCTGTGTATCGATGCATTCCCTATCGGTG
* *
20992 CATCGATGCACTACCTGTGCATCGGTGCAT
1 CATCGATGCACTACCTGTGTATCGATGCAT
21022 AAAATACATT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 55 0.80
43 14 0.20
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (42 bp):
CATCGATGCACTACCTGTGTATCGATGCATTCCCTATCGGTG
Found at i:21122 original size:19 final size:19
Alignment explanation
Indices: 21098--21161 Score: 119
Period size: 19 Copynumber: 3.4 Consensus size: 19
21088 TTTTAAAAGA
21098 GTGCATCGATGCACTACCT
1 GTGCATCGATGCACTACCT
21117 GTGCATCGATGCACTACCT
1 GTGCATCGATGCACTACCT
*
21136 GTGCATCTATGCACTACCT
1 GTGCATCGATGCACTACCT
21155 GTGCATC
1 GTGCATC
21162 AATACACCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.28
Consensus pattern (19 bp):
GTGCATCGATGCACTACCT
Found at i:25949 original size:23 final size:23
Alignment explanation
Indices: 25923--25991 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
25913 CACCACAGCT
25923 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
25946 CATATAATTGCATCGAAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
25969 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
25992 TATAATACTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:26164 original size:96 final size:96
Alignment explanation
Indices: 26010--26189 Score: 324
Period size: 96 Copynumber: 1.9 Consensus size: 96
26000 TGTCCATAAG
* * *
26010 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAACCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
26075 TTCACACATGTTCCAAAGATATGTCCCGAAA
66 TTCACACATGTTCCAAAGATATGTCCCGAAA
*
26106 GACCACATATCATTCCTTAAGAACCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAACCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
26171 TTCACACATGTTCCAAAGA
66 TTCACACATGTTCCAAAGA
26190 ATACATATAT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (96 bp):
GACCACATATCATTCCTTAAGAACCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGATATGTCCCGAAA
Found at i:28847 original size:76 final size:76
Alignment explanation
Indices: 28754--28907 Score: 193
Period size: 76 Copynumber: 2.0 Consensus size: 76
28744 TTTTATAAAC
* * * * * **
28754 TTGACTCGACT-TAAAAAATTTTCAAATAAAGTTTTAGTTATAAAATAGGACCCGTCAACTCGAA
1 TTGACTCGACTCAAAAAAACTTT-AAATAAAATTTTAATTATAAAATAAGACAAGTCAACTCGAA
28818 TAACTCAAAATT
65 TAACTCAAAATT
* * * *
28830 TTGACTCGACTCGAAAAAACTTTAAATAAAATTTTAATTATAAAATAAGATAATTCAACTTGAAT
1 TTGACTCGACTCAAAAAAACTTTAAATAAAATTTTAATTATAAAATAAGACAAGTCAACTCGAAT
28895 AACTCAAAATT
66 AACTCAAAATT
28906 TT
1 TT
28908 TTGACTTAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
76 58 0.87
77 9 0.13
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (76 bp):
TTGACTCGACTCAAAAAAACTTTAAATAAAATTTTAATTATAAAATAAGACAAGTCAACTCGAAT
AACTCAAAATT
Found at i:29318 original size:19 final size:18
Alignment explanation
Indices: 29273--29318 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
29263 CATTAAAATT
29273 AAAA-TTTTAAACGCCTC
1 AAAATTTTTAAACGCCTC
29290 AAAATTTTTAAACGCCTC
1 AAAATTTTTAAACGCCTC
29308 AAAAGTTTTTA
1 AAAA-TTTTTA
29319 GAATACTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 4 0.15
18 17 0.63
19 6 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (18 bp):
AAAATTTTTAAACGCCTC
Found at i:35074 original size:23 final size:23
Alignment explanation
Indices: 35056--35114 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
35046 CTCGTATAAA
35056 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
35079 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
35101 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
35115 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:35892 original size:67 final size:67
Alignment explanation
Indices: 35721--35870 Score: 241
Period size: 67 Copynumber: 2.3 Consensus size: 67
35711 TTCTTCTCAT
* * *
35721 GGGGGAATCGGTTCCCCCCCT-GGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCGT
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAATATCATATCCGT
35785 TGA
65 TGA
*
35788 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAATATCATATCCGTT
35852 GA
66 GA
35854 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
35871 TTGAATGGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
66 36 0.46
67 42 0.54
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAATATCATATCCGTT
GA
Found at i:41953 original size:23 final size:23
Alignment explanation
Indices: 41927--41993 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 23
41917 CACCACAGCT
*
41927 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
*
41950 CGTAGAATTGCACCGAAGTG-CC
1 CGTAGAAATGCACCGAAGTGCCC
* * *
41972 CGTAGAATTACACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
41994 ATATAATGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 20 0.51
23 19 0.49
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:41976 original size:22 final size:22
Alignment explanation
Indices: 41935--41993 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
41925 CTCGTATAAA
41935 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
41958 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
* *
41980 TACACCGTAGTGCC
1 TGCACCGAAGTGCC
41994 ATATAATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 22 0.65
23 12 0.35
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:42772 original size:67 final size:67
Alignment explanation
Indices: 42600--42750 Score: 234
Period size: 66 Copynumber: 2.3 Consensus size: 67
42590 TTCTTCTCAT
* * *
42600 GGGGGAATCGGTTCCCCCCCCT-GGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTCATATCCG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAATATCATATCCG
42664 TTGA
64 TTGA
*
42668 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAATATCATATCCGTT
42732 GA
66 GA
42734 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
42751 TTGAATGGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
66 36 0.46
67 30 0.38
68 12 0.15
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.29
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAATATCATATCCGTT
GA
Found at i:50438 original size:31 final size:31
Alignment explanation
Indices: 50403--50473 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
50393 ATTATTATAT
* * * *
50403 TAAAATGATTTTTTAGTTTA-CAAATTTATTA
1 TAAAATGATTATTAAATTTATCAAA-ATATTA
*
50434 TAAAATAATTATTAAATTTATCAAAATATTA
1 TAAAATGATTATTAAATTTATCAAAATATTA
50465 TAAAATGAT
1 TAAAATGAT
50474 CGTTATAGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (31 bp):
TAAAATGATTATTAAATTTATCAAAATATTA
Found at i:50464 original size:20 final size:20
Alignment explanation
Indices: 50431--50470 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50421 TACAAATTTA
*
50431 TTATAAAATAATTATTAAAT
1 TTATAAAATAATTATAAAAT
50451 TTATCAAAAT-ATTATAAAAT
1 TTAT-AAAATAATTATAAAAT
50471 GATCGTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTATAAAATAATTATAAAAT
Found at i:50624 original size:19 final size:19
Alignment explanation
Indices: 50567--50628 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 19
50557 CTCACTCTAT
50567 AATAATTTTAT-ATATTCTA
1 AATAATTTTATAATATT-TA
*
50586 ATGATGATTTTATAAATATTTA
1 A--ATAATTTTAT-AATATTTA
50608 AATAATTTTATAATATTTA
1 AATAATTTTATAATATTTA
50627 AA
1 AA
50629 ATATTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 11 0.30
20 9 0.24
21 9 0.24
22 3 0.08
23 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (19 bp):
AATAATTTTATAATATTTA
Found at i:50630 original size:20 final size:20
Alignment explanation
Indices: 50567--50631 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
50557 CTCACTCTAT
50567 AATAATTTTAT-ATATTCTAA
1 AATAATTTTATAATATT-TAA
* *
50587 TGATGATTTTATAAATATTT-A
1 -AATAATTTTAT-AATATTTAA
50608 AATAATTTTATAATATTTAA
1 AATAATTTTATAATATTTAA
50628 AATA
1 AATA
50632 TTATTTTGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 7 0.19
20 14 0.38
21 10 0.27
22 1 0.03
23 5 0.14
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (20 bp):
AATAATTTTATAATATTTAA
Found at i:53172 original size:41 final size:41
Alignment explanation
Indices: 53118--53196 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
53108 CCATGACATG
*
53118 TGGGGTATATGCAAATGAGTGAGCTGTAATATTGAGTTACA
1 TGGGGTATATGCAAATGAGTGAGCTGCAATATTGAGTTACA
* *
53159 TGGGGTTTGTGCAAATGAGTGAGCTGCAATATTGAGTT
1 TGGGGTATATGCAAATGAGTGAGCTGCAATATTGAGTT
53197 CCACAGGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.33
Consensus pattern (41 bp):
TGGGGTATATGCAAATGAGTGAGCTGCAATATTGAGTTACA
Found at i:53214 original size:41 final size:41
Alignment explanation
Indices: 53127--53207 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
53117 GTGGGGTATA
* **
53127 TGCAAATGAGTGAGCTGTAATATTGAGTTACATGGGGTTTG
1 TGCAAATGAGTGAGCTGCAATATTGAGTTACACAGGGTTTG
*
53168 TGCAAATGAGTGAGCTGCAATATTGAGTTCCACAGGGTTT
1 TGCAAATGAGTGAGCTGCAATATTGAGTTACACAGGGTTT
53208 TAGCAAAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (41 bp):
TGCAAATGAGTGAGCTGCAATATTGAGTTACACAGGGTTTG
Found at i:61958 original size:5 final size:5
Alignment explanation
Indices: 61948--61980 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
61938 ATATTTGAAG
*
61948 TTTGA TTTGA TTTGA TTTGA TTTAA TTTGA TTT
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTTGA TTT
61981 TTACAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (5 bp):
TTTGA
Found at i:62521 original size:15 final size:15
Alignment explanation
Indices: 62497--62533 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
62487 GCAACATTAA
*
62497 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
62512 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
*
62527 ACTAAAT
1 ATTAAAT
62534 GAATAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:64196 original size:16 final size:16
Alignment explanation
Indices: 64167--64197 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64157 TTTTATAAAT
*
64167 ATTACATTTTAATTAA
1 ATTACATTTAAATTAA
64183 ATTACATTTAAATTA
1 ATTACATTTAAATTA
64198 TTAAATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTACATTTAAATTAA
Done.